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    splicing factor [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 836548, updated on 18-Sep-2024

    Summary

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    Official Full Name
    splicing factor
    Primary source
    TAIR:AT5G64270
    Locus tag
    AT5G64270
    See related
    Araport:AT5G64270
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    MSJ1.11; MSJ1_11
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    Genomic context

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    Location:
    chromosome: 5
    Exon count:
    2
    Sequence:
    Chromosome: 5; NC_003076.8 (25706608..25711355)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene Aldolase-type TIM barrel family protein Neighboring gene metacaspase 3 Neighboring gene EXORDIUM like 2 Neighboring gene dicarboxylate transporter 2.2 Neighboring gene dicarboxylate transport 2.1 Neighboring gene GTP cyclohydrolase II

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Analysis of the Arabidopsis cytosolic proteome highlights subcellular partitioning of central plant metabolism. Ito J, et al. J Proteome Res, 2011 Apr 1. PMID 21166475
    2. A Pan-plant Protein Complex Map Reveals Deep Conservation and Novel Assemblies. McWhite CD, et al. Cell, 2020 Apr 16. PMID 32191846, Free PMC Article
    3. Global Analysis of Membrane-associated Protein Oligomerization Using Protein Correlation Profiling. McBride Z, et al. Mol Cell Proteomics, 2017 Nov. PMID 28887381, Free PMC Article
    4. Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature, 2000 Dec 14. PMID 11130714

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_125823.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables mRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in spliceosomal complex assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    NOT located_in cytosol RCA
    inferred from Reviewed Computational Analysis
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  
    located_in plastid HDA PubMed 

    General protein information

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    Preferred Names
    splicing factor
    NP_201232.1
    • splicing factor, putative; FUNCTIONS IN: binding; INVOLVED IN: mRNA processing; LOCATED IN: chloroplast; EXPRESSED IN: 26 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: HEAT (InterPro:IPR000357), Armadillo-like helical (InterPro:IPR011989), Splicing factor 3B subunit 1 (InterPro:IPR015016), HEAT, type 2 (InterPro:IPR021133), Armadillo-type fold (InterPro:IPR016024); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_003076.8 Reference assembly

      Range
      25706608..25711355
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_125823.3 → NP_201232.1  splicing factor [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_201232.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UBP3, A0A5S9YGW5, A0A654GF01, Q9FMF9
      Conserved Domains (3) summary
      COG5181
      Location:385 → 1262
      HSH155; U2 snRNP spliceosome subunit [RNA processing and modification]
      sd00044
      Location:816 → 838
      HEAT; HEAT repeat [structural motif]
      pfam08920
      Location:287 → 406
      SF3b1; Splicing factor 3B subunit 1
    Nucleotide Protein
    Heading Accession and Version

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